Query 002804
Match_columns 879
No_of_seqs 289 out of 1374
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 07:27:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002804.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002804hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1763 Uncharacterized conser 99.5 2.6E-15 5.7E-20 158.8 2.4 129 421-555 24-193 (343)
2 KOG1040 Polyadenylation factor 99.2 1.3E-11 2.8E-16 133.8 4.8 98 469-578 73-174 (325)
3 COG5252 Uncharacterized conser 99.2 5.4E-12 1.2E-16 130.9 0.5 76 422-500 29-112 (299)
4 KOG1492 C3H1-type Zn-finger pr 99.0 1.1E-10 2.5E-15 120.9 2.8 99 474-583 207-310 (377)
5 KOG1492 C3H1-type Zn-finger pr 98.9 6.2E-10 1.3E-14 115.5 3.2 95 459-556 219-316 (377)
6 KOG1595 CCCH-type Zn-finger pr 98.8 4.2E-08 9E-13 111.5 15.0 76 481-560 206-299 (528)
7 COG5084 YTH1 Cleavage and poly 98.7 1.6E-08 3.5E-13 108.4 7.7 105 470-577 101-211 (285)
8 KOG1040 Polyadenylation factor 98.7 2.1E-08 4.5E-13 109.3 6.3 109 469-582 41-154 (325)
9 KOG4791 Uncharacterized conser 98.6 2.4E-08 5.3E-13 111.8 4.6 78 474-555 4-87 (667)
10 KOG1677 CCCH-type Zn-finger pr 98.5 7.9E-08 1.7E-12 102.8 5.5 83 474-556 87-205 (332)
11 COG5084 YTH1 Cleavage and poly 98.3 2.5E-06 5.4E-11 91.9 11.1 115 472-598 73-193 (285)
12 KOG4791 Uncharacterized conser 98.3 8.3E-07 1.8E-11 99.9 6.7 159 473-636 32-232 (667)
13 KOG2494 C3H1-type Zn-finger pr 98.3 5.8E-07 1.3E-11 97.6 5.1 53 473-526 37-93 (331)
14 KOG1677 CCCH-type Zn-finger pr 97.9 6.4E-06 1.4E-10 88.3 3.0 53 474-526 133-201 (332)
15 COG5063 CTH1 CCCH-type Zn-fing 97.5 7.6E-05 1.7E-09 81.0 4.6 81 474-554 231-340 (351)
16 KOG2494 C3H1-type Zn-finger pr 97.5 3.3E-05 7.2E-10 84.3 1.7 51 504-556 38-97 (331)
17 PF00642 zf-CCCH: Zinc finger 97.3 5.7E-05 1.2E-09 55.0 0.1 23 474-496 4-27 (27)
18 KOG1595 CCCH-type Zn-finger pr 97.1 0.0074 1.6E-07 69.9 14.4 56 527-595 235-292 (528)
19 COG5063 CTH1 CCCH-type Zn-fing 97.0 0.0013 2.9E-08 71.7 7.3 52 504-555 231-301 (351)
20 smart00356 ZnF_C3H1 zinc finge 97.0 0.00048 1E-08 48.7 2.3 22 474-495 5-26 (27)
21 PF00642 zf-CCCH: Zinc finger 96.7 0.00039 8.4E-09 50.7 -0.4 23 529-551 4-26 (27)
22 smart00356 ZnF_C3H1 zinc finge 96.0 0.0042 9.2E-08 43.9 2.0 22 504-525 5-26 (27)
23 KOG2333 Uncharacterized conser 95.6 0.0041 9E-08 71.5 1.0 58 474-551 77-137 (614)
24 KOG2333 Uncharacterized conser 95.6 0.0034 7.4E-08 72.2 0.3 25 504-528 77-104 (614)
25 KOG2185 Predicted RNA-processi 94.8 0.015 3.2E-07 65.9 2.1 25 528-553 140-164 (486)
26 KOG2185 Predicted RNA-processi 93.5 0.029 6.3E-07 63.6 1.1 24 473-496 140-163 (486)
27 PF14608 zf-CCCH_2: Zinc finge 92.3 0.082 1.8E-06 36.2 1.6 17 476-494 2-18 (19)
28 PF14608 zf-CCCH_2: Zinc finge 91.3 0.14 3.1E-06 35.1 1.8 19 530-551 1-19 (19)
29 KOG3702 Nuclear polyadenylated 88.6 0.79 1.7E-05 55.0 6.2 22 474-498 545-566 (681)
30 KOG3702 Nuclear polyadenylated 87.4 1.2 2.7E-05 53.4 6.8 66 474-555 556-648 (681)
31 COG5152 Uncharacterized conser 84.7 0.47 1E-05 50.1 1.5 30 468-498 137-167 (259)
32 KOG1039 Predicted E3 ubiquitin 81.1 0.59 1.3E-05 52.6 0.6 24 474-497 9-32 (344)
33 COG5152 Uncharacterized conser 79.3 0.74 1.6E-05 48.7 0.6 24 530-553 143-166 (259)
34 PF10650 zf-C3H1: Putative zin 73.9 1.8 3.9E-05 31.6 1.2 19 505-524 2-21 (23)
35 KOG1763 Uncharacterized conser 69.8 1.5 3.2E-05 48.7 0.0 23 504-526 93-115 (343)
36 PF10650 zf-C3H1: Putative zin 69.6 2.6 5.7E-05 30.8 1.2 21 530-551 2-22 (23)
37 KOG1813 Predicted E3 ubiquitin 69.4 2.9 6.3E-05 46.5 2.1 25 474-498 187-212 (313)
38 KOG1039 Predicted E3 ubiquitin 68.8 2.1 4.5E-05 48.3 0.9 23 504-526 9-31 (344)
39 KOG1813 Predicted E3 ubiquitin 66.4 2 4.2E-05 47.8 0.1 23 504-526 187-210 (313)
40 KOG0153 Predicted RNA-binding 62.2 4.3 9.3E-05 46.1 1.7 30 468-497 156-185 (377)
41 COG5252 Uncharacterized conser 58.6 1.7 3.6E-05 47.1 -2.1 52 503-554 85-177 (299)
42 KOG0153 Predicted RNA-binding 55.2 6.1 0.00013 44.9 1.4 24 503-526 161-184 (377)
43 KOG2202 U2 snRNP splicing fact 54.0 5.9 0.00013 43.4 1.0 35 462-497 142-176 (260)
44 PF07620 SLEI_Leptospira: SLEI 24.7 21 0.00045 24.3 -0.3 13 218-230 4-16 (16)
No 1
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=99.52 E-value=2.6e-15 Score=158.79 Aligned_cols=129 Identities=32% Similarity=0.583 Sum_probs=81.1
Q ss_pred CCcCcccccccccchH------------------HHHHHHHHHHHHHHHHHhhhcCCCCCCCCCccCCCccccccccccc
Q 002804 421 LDSGACNKRKRSALSK------------------EKKAKKKQKERKKRAEKNRQLGVRRLKLPQNLKPKTVKYCHHYLKG 482 (879)
Q Consensus 421 ~tFGLKNKkKKk~vSk------------------E~KaKKKKKerkkraEkrkq~Gvkr~k~p~v~DPKs~~VCrfFlrG 482 (879)
+|||||||++++.+++ ...+++++++.+++ +++...-...++++.++|||+ .+|.||++|
T Consensus 24 KTFGLKNKk~sk~vQK~I~qv~~qvq~~~~~d~~k~~e~kkk~e~~~~-e~~~lfkp~~qkv~~gvDPKS-vvCafFk~g 101 (343)
T KOG1763|consen 24 KTFGLKNKKGSKKVQKFIKQVEQQVQQNPRKDAKKRAEEKKKKEEKQR-ELNELFKPADQKVPKGVDPKS-VVCAFFKQG 101 (343)
T ss_pred hhcccccccccHHHHHHHHHHHHHhhcccchhHHHHHHHHhcchHHHH-HHHHhccccccccccCCCchH-HHHHHHhcc
Confidence 3999999999999777 11222222223332 334444457789999999999 999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCcccc-------ccccCC------CCCCCCCCCCCCCCCCCCccccc------cC---CC
Q 002804 483 RCQEGDKCKFSHDTVPLTKSTKACC-------HFARNS------CMKGDNCPFDHDLSKYPCENFVA------KG---FC 540 (879)
Q Consensus 483 ~C~KGdkCkFSHD~splrK~t~~Ck-------~FlkGs------Ck~GD~CpFsH~lstipCkfF~~------~G---~C 540 (879)
.|.+|+.|+|+|++...++....=- .|.... =++| . ....+.++|+||+. || .|
T Consensus 102 ~C~KG~kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~---k-~k~~tdiVCKfFLeAvE~~kYGWfW~C 177 (343)
T KOG1763|consen 102 TCTKGDKCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHG---K-PKPTTDIVCKFFLEAVENGKYGWFWEC 177 (343)
T ss_pred CCCCCCcccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhcc---C-CCCchhHHHHHHHHHHhcCCccceeEC
Confidence 9999999999999865443200000 011100 0000 0 00012345666652 33 59
Q ss_pred CCC-CCCCCCCCCCCC
Q 002804 541 NRG-DNCLFSHKLPPK 555 (879)
Q Consensus 541 ~rG-dsCrFaH~~~~~ 555 (879)
|+| +.|.|+|.+|..
T Consensus 178 PnGg~~C~YrHaLP~G 193 (343)
T KOG1763|consen 178 PNGGDKCIYRHALPEG 193 (343)
T ss_pred CCCCCeeeeeecCCcc
Confidence 999 579999999873
No 2
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=99.18 E-value=1.3e-11 Score=133.81 Aligned_cols=98 Identities=31% Similarity=0.706 Sum_probs=80.5
Q ss_pred CCCcccccccccccCCCCCCCCCCCCCCCCCCCCCcccccccc-CCCCCCCCCCCCCCC---CCCCCccccccCCCCCCC
Q 002804 469 KPKTVKYCHHYLKGRCQEGDKCKFSHDTVPLTKSTKACCHFAR-NSCMKGDNCPFDHDL---SKYPCENFVAKGFCNRGD 544 (879)
Q Consensus 469 DPKs~~VCrfFlrG~C~KGdkCkFSHD~splrK~t~~Ck~Flk-GsCk~GD~CpFsH~l---stipCkfF~~~G~C~rGd 544 (879)
+.++.++|+||++|.|++|+.|.|+|+. .+.+. +.|.||.. |.|.+|.+|+|.|.. ....|.+|. .|+|+.|+
T Consensus 73 ~~~~~~vcK~~l~glC~kgD~C~Flhe~-~~~k~-rec~ff~~~g~c~~~~~c~y~h~dpqt~~k~c~~~~-~g~c~~g~ 149 (325)
T KOG1040|consen 73 DSRGKVVCKHWLRGLCKKGDQCEFLHEY-DLTKM-RECKFFSLFGECTNGKDCPYLHGDPQTAIKKCKWYK-EGFCRGGP 149 (325)
T ss_pred ccCCceeehhhhhhhhhccCcCcchhhh-hhccc-ccccccccccccccccCCcccCCChhhhhhccchhh-hccCCCcc
Confidence 4667799999999999999999999999 66665 78999875 899999999999985 234699998 89999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 002804 545 NCLFSHKLPPKEQDPPTPSTCTPELKPSPPLYAS 578 (879)
Q Consensus 545 sCrFaH~~~~~~~lP~as~vCtp~Lkg~SpsssS 578 (879)
.|+++|.... .|.+.+.+.|+.+..
T Consensus 150 ~c~~~h~~~~---------~c~~y~~gfC~~g~q 174 (325)
T KOG1040|consen 150 SCKKRHERKV---------LCPPYNAGFCPKGPQ 174 (325)
T ss_pred hhhhhhhccc---------CCCchhhhhccCCCC
Confidence 9999999873 355555555555544
No 3
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=99.16 E-value=5.4e-12 Score=130.94 Aligned_cols=76 Identities=28% Similarity=0.510 Sum_probs=53.9
Q ss_pred CcCcccccccccchH--------HHHHHHHHHHHHHHHHHhhhcCCCCCCCCCccCCCcccccccccccCCCCCCCCCCC
Q 002804 422 DSGACNKRKRSALSK--------EKKAKKKQKERKKRAEKNRQLGVRRLKLPQNLKPKTVKYCHHYLKGRCQEGDKCKFS 493 (879)
Q Consensus 422 tFGLKNKkKKk~vSk--------E~KaKKKKKerkkraEkrkq~Gvkr~k~p~v~DPKs~~VCrfFlrG~C~KGdkCkFS 493 (879)
+||||||+++-.++. ..+.+.++++++..++++++.- .+.++.+++||+ .+|..|+.+.|.+|+.|+|+
T Consensus 29 tFGlKNKnrsTKVqa~ikQie~~~~~~~~e~~~k~~~e~KRre~e--kq~iragvdpK~-~vcalF~~~~c~kg~~ckF~ 105 (299)
T COG5252 29 TFGLKNKNRSTKVQAIIKQIETLNLKEQLEKKEKMRMEEKRREPE--KQVIRAGVDPKT-VVCALFLNKTCAKGDACKFA 105 (299)
T ss_pred hcccccccccHHHHHHHHHHHhhcchhHHHHHHHHHHHHhhcchh--hhhhccccCchh-HHHHHhccCccccCchhhhh
Confidence 999999999966665 2222333333333333333331 256788899999 99999999999999999999
Q ss_pred CCCCCCC
Q 002804 494 HDTVPLT 500 (879)
Q Consensus 494 HD~splr 500 (879)
|+....+
T Consensus 106 h~~ee~r 112 (299)
T COG5252 106 HGKEEAR 112 (299)
T ss_pred cchHHHh
Confidence 9965443
No 4
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=99.01 E-value=1.1e-10 Score=120.91 Aligned_cols=99 Identities=27% Similarity=0.564 Sum_probs=51.8
Q ss_pred ccccccc-ccCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCC---CCCCCccccccCCCCCCCCCCCC
Q 002804 474 KYCHHYL-KGRCQEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDL---SKYPCENFVAKGFCNRGDNCLFS 549 (879)
Q Consensus 474 ~VCrfFl-rG~C~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~l---stipCkfF~~~G~C~rGdsCrFa 549 (879)
+.|+||. .|.|-+|..|+|.|.+.. . .+|+.|+.|+|.+.++|.++|.+ +.+.|+||+ .|.|.+. +|+|.
T Consensus 207 vycryynangicgkgaacrfvheptr---k-ticpkflngrcnkaedcnlsheldprripacryfl-lgkcnnp-ncryv 280 (377)
T KOG1492|consen 207 VYCRYYNANGICGKGAACRFVHEPTR---K-TICPKFLNGRCNKAEDCNLSHELDPRRIPACRYFL-LGKCNNP-NCRYV 280 (377)
T ss_pred eEEEEecCCCcccCCceeeeeccccc---c-ccChHHhcCccCchhcCCcccccCccccchhhhhh-hccCCCC-CceEE
Confidence 5566665 366666666666665531 1 45666666666665666666653 122366665 5666553 56666
Q ss_pred CCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCC
Q 002804 550 HKLPPKEQDPPTPSTCTPEL-KPSPPLYASNLLKP 583 (879)
Q Consensus 550 H~~~~~~~lP~as~vCtp~L-kg~SpsssS~~~~p 583 (879)
|..-.... .+|..|. ++.|.++.+|...+
T Consensus 281 hihysena-----picfefakygfcelgtscknqh 310 (377)
T KOG1492|consen 281 HIHYSENA-----PICFEFAKYGFCELGTSCKNQH 310 (377)
T ss_pred EEeecCCC-----ceeeeehhcceeccccccccce
Confidence 65443221 3444332 35555555554443
No 5
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=98.90 E-value=6.2e-10 Score=115.54 Aligned_cols=95 Identities=27% Similarity=0.567 Sum_probs=85.0
Q ss_pred CCCCCCCCccCCCcccccccccccCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCC---CCCCCcccc
Q 002804 459 VRRLKLPQNLKPKTVKYCHHYLKGRCQEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDL---SKYPCENFV 535 (879)
Q Consensus 459 vkr~k~p~v~DPKs~~VCrfFlrG~C~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~l---stipCkfF~ 535 (879)
-+...|++++.|.+..+|.-|+.|+|.+...|.++|.+.|.+ .+.|+||+.|.|.+ ++|+|.|.. ..++|..|.
T Consensus 219 gkgaacrfvheptrkticpkflngrcnkaedcnlsheldprr--ipacryfllgkcnn-pncryvhihysenapicfefa 295 (377)
T KOG1492|consen 219 GKGAACRFVHEPTRKTICPKFLNGRCNKAEDCNLSHELDPRR--IPACRYFLLGKCNN-PNCRYVHIHYSENAPICFEFA 295 (377)
T ss_pred cCCceeeeeccccccccChHHhcCccCchhcCCcccccCccc--cchhhhhhhccCCC-CCceEEEEeecCCCceeeeeh
Confidence 345678999999999999999999999999999999998753 38999999999998 999999973 567899999
Q ss_pred ccCCCCCCCCCCCCCCCCCCC
Q 002804 536 AKGFCNRGDNCLFSHKLPPKE 556 (879)
Q Consensus 536 ~~G~C~rGdsCrFaH~~~~~~ 556 (879)
.+|+|..|..|+-.|.+.+.+
T Consensus 296 kygfcelgtscknqhilqctd 316 (377)
T KOG1492|consen 296 KYGFCELGTSCKNQHILQCTD 316 (377)
T ss_pred hcceeccccccccceeeeecc
Confidence 999999999999999998744
No 6
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=98.84 E-value=4.2e-08 Score=111.50 Aligned_cols=76 Identities=28% Similarity=0.724 Sum_probs=62.6
Q ss_pred ccCCCCCCCCCCCCCCCCCCCC--------CccccccccCCCCCCCCCCCCCCC----------CCCCCccccccCCCCC
Q 002804 481 KGRCQEGDKCKFSHDTVPLTKS--------TKACCHFARNSCMKGDNCPFDHDL----------SKYPCENFVAKGFCNR 542 (879)
Q Consensus 481 rG~C~KGdkCkFSHD~splrK~--------t~~Ck~FlkGsCk~GD~CpFsH~l----------stipCkfF~~~G~C~r 542 (879)
+++|..+..|+|+|.....||. -.+|+.|.+|.|.+||.|.|+|.. ++.+|+.. |+|++
T Consensus 206 R~~shDwteCPf~HpgEkARRRDPRkyhYs~tpCPefrkG~C~rGD~CEyaHgvfEcwLHPa~YRT~~CkDg---~~C~R 282 (528)
T KOG1595|consen 206 RPRSHDWTECPFAHPGEKARRRDPRKYHYSSTPCPEFRKGSCERGDSCEYAHGVFECWLHPARYRTRKCKDG---GYCPR 282 (528)
T ss_pred CccCCCcccCCccCCCcccccCCcccccccCccCcccccCCCCCCCccccccceehhhcCHHHhccccccCC---CCCcc
Confidence 3677778999999965544432 469999999999999999999993 67789964 88999
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 002804 543 GDNCLFSHKLPPKEQDPP 560 (879)
Q Consensus 543 GdsCrFaH~~~~~~~lP~ 560 (879)
.-|.|+|...+.+.++.
T Consensus 283 -rvCfFAH~~eqLR~l~~ 299 (528)
T KOG1595|consen 283 -RVCFFAHSPEQLRPLPP 299 (528)
T ss_pred -ceEeeecChHHhcccCC
Confidence 69999999998877654
No 7
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.75 E-value=1.6e-08 Score=108.37 Aligned_cols=105 Identities=28% Similarity=0.587 Sum_probs=83.1
Q ss_pred CCcccccccccccCCCCCCCCCCCCCCCCCCCCCcccccc-ccCCCCCCCCCCCCCCC---CCCCCccccc--cCCCCCC
Q 002804 470 PKTVKYCHHYLKGRCQEGDKCKFSHDTVPLTKSTKACCHF-ARNSCMKGDNCPFDHDL---SKYPCENFVA--KGFCNRG 543 (879)
Q Consensus 470 PKs~~VCrfFlrG~C~KGdkCkFSHD~splrK~t~~Ck~F-lkGsCk~GD~CpFsH~l---stipCkfF~~--~G~C~rG 543 (879)
+.+-++|++|+.|+|..|..|.|+|...........|++| ..|.|..|..|.|.|.. ....|.+|.. +|+|+.|
T Consensus 101 ~~s~V~c~~~~~g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~c~~~h~dp~~~~~~~~~~~~~~~~f~p~g 180 (285)
T COG5084 101 LSSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPSCGYSHIDPDSFAGNCDQYSGATYGFCPLG 180 (285)
T ss_pred ccCCcccchhccccCcCCCccccccCCCcccccCCCcccccccceeccCCCCCccccCcccccccccccCcccccccCCC
Confidence 4555999999999999999999999998765445899999 67999999999999984 3445888874 7999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 002804 544 DNCLFSHKLPPKEQDPPTPSTCTPELKPSPPLYA 577 (879)
Q Consensus 544 dsCrFaH~~~~~~~lP~as~vCtp~Lkg~Spsss 577 (879)
..|++.|........+ ..|.......||++.
T Consensus 181 ~~c~~~H~~~~~~~~~---~p~~~y~~~fsP~g~ 211 (285)
T COG5084 181 ASCKFSHTLKRVSYGS---SPCGNYTPPFSPPGT 211 (285)
T ss_pred Cccccccccccccccc---cccccCcCCcCCCCC
Confidence 9999999998543322 245555555555444
No 8
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=98.69 E-value=2.1e-08 Score=109.33 Aligned_cols=109 Identities=25% Similarity=0.436 Sum_probs=82.4
Q ss_pred CCCcccccccccc--cCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCC---CCCCCccccccCCCCCC
Q 002804 469 KPKTVKYCHHYLK--GRCQEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDL---SKYPCENFVAKGFCNRG 543 (879)
Q Consensus 469 DPKs~~VCrfFlr--G~C~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~l---stipCkfF~~~G~C~rG 543 (879)
++.....|.++.. -.|.+|..|.+.|......+...+|+||++|.|++||.|.|+|.+ +...|.||..+|.|.++
T Consensus 41 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vcK~~l~glC~kgD~C~Flhe~~~~k~rec~ff~~~g~c~~~ 120 (325)
T KOG1040|consen 41 DESGRATCEFNESREKPCERGPICPKSHNDVSDSRGKVVCKHWLRGLCKKGDQCEFLHEYDLTKMRECKFFSLFGECTNG 120 (325)
T ss_pred cccccchhcccccCCCCccCCCCCccccCCccccCCceeehhhhhhhhhccCcCcchhhhhhcccccccccccccccccc
Confidence 4433478999987 679999999999999642233489999999999999999999984 45579999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 002804 544 DNCLFSHKLPPKEQDPPTPSTCTPELKPSPPLYASNLLK 582 (879)
Q Consensus 544 dsCrFaH~~~~~~~lP~as~vCtp~Lkg~SpsssS~~~~ 582 (879)
.+|.|.|..+... ...|.-+-.+.|..+.++...
T Consensus 121 ~~c~y~h~dpqt~-----~k~c~~~~~g~c~~g~~c~~~ 154 (325)
T KOG1040|consen 121 KDCPYLHGDPQTA-----IKKCKWYKEGFCRGGPSCKKR 154 (325)
T ss_pred cCCcccCCChhhh-----hhccchhhhccCCCcchhhhh
Confidence 9999999986322 233443444555555544443
No 9
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.62 E-value=2.4e-08 Score=111.83 Aligned_cols=78 Identities=28% Similarity=0.686 Sum_probs=67.1
Q ss_pred cccccccccCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCC-----CCCCCccccccCC-CCCCCCCC
Q 002804 474 KYCHHYLKGRCQEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDL-----SKYPCENFVAKGF-CNRGDNCL 547 (879)
Q Consensus 474 ~VCrfFlrG~C~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~l-----stipCkfF~~~G~-C~rGdsCr 547 (879)
..|.||++-.|++++.|.|+|....+... ..|.+|+.+.|.+ +.|+|+|.. +..+|+||. +|. |.+ ++|-
T Consensus 4 ~dcyff~ys~cKk~d~c~~rh~E~al~n~-t~C~~w~~~~~C~-k~C~YRHSe~~~kr~e~~CYwe~-~p~gC~k-~~Cg 79 (667)
T KOG4791|consen 4 EDCYFFFYSTCKKGDSCPFRHCEAALGNE-TVCTLWQEGRCCR-KVCRYRHSEIDKKRSEIPCYWEN-QPTGCQK-LNCG 79 (667)
T ss_pred ccchhhhhhhhhccCcCcchhhHHHhcCc-chhhhhhhcCccc-ccccchhhHHhhhcCcccceeec-CCCccCC-Cccc
Confidence 56999999999999999999999877665 8999999988666 699999983 577899998 555 999 4999
Q ss_pred CCCCCCCC
Q 002804 548 FSHKLPPK 555 (879)
Q Consensus 548 FaH~~~~~ 555 (879)
|+|..++.
T Consensus 80 fRH~~pPL 87 (667)
T KOG4791|consen 80 FRHNRPPL 87 (667)
T ss_pred cccCCCch
Confidence 99988554
No 10
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=98.54 E-value=7.9e-08 Score=102.82 Aligned_cols=83 Identities=31% Similarity=0.751 Sum_probs=69.1
Q ss_pred cccccccc-cCCCCCCCCCCCCCC-CC--------------CCCCCcccccccc-CCCCC-CCCCCCCCCC---------
Q 002804 474 KYCHHYLK-GRCQEGDKCKFSHDT-VP--------------LTKSTKACCHFAR-NSCMK-GDNCPFDHDL--------- 526 (879)
Q Consensus 474 ~VCrfFlr-G~C~KGdkCkFSHD~-sp--------------lrK~t~~Ck~Flk-GsCk~-GD~CpFsH~l--------- 526 (879)
..|.+|.+ +.|..+..|+|.|.. .. .+..+++|++|.+ |.|++ |+.|+|.|..
T Consensus 87 ~~~~~~~~~~~~~~~s~~~~~~p~~~~~~~~~~~~~~~~~p~~~kt~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~~~ 166 (332)
T KOG1677|consen 87 GDCSAYLRTGVCGYGSSCRYNHPDLRLRPRPVRRSRGERKPERYKTPLCRSFRKSGTCKYRGEQCRFAHGLEELRLPSSE 166 (332)
T ss_pred cccccccccCCCCCCCCCCccCcccccccCCccccccccCcccccCCcceeeecCccccccCchhhhcCCcccccccccc
Confidence 57999996 999999999999995 11 1122679999987 89999 9999999983
Q ss_pred ---------CCCCCccccccCCCCCCCCCCCCCCCCCCC
Q 002804 527 ---------SKYPCENFVAKGFCNRGDNCLFSHKLPPKE 556 (879)
Q Consensus 527 ---------stipCkfF~~~G~C~rGdsCrFaH~~~~~~ 556 (879)
++.+|.+|...|.|++|..|+|.|......
T Consensus 167 ~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~~~ 205 (332)
T KOG1677|consen 167 NQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPEDR 205 (332)
T ss_pred hhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCcccc
Confidence 245799999889999999999999987643
No 11
>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
Probab=98.35 E-value=2.5e-06 Score=91.93 Aligned_cols=115 Identities=24% Similarity=0.369 Sum_probs=88.7
Q ss_pred cccccccccc-cCCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCC-----CCCCccccccCCCCCCCC
Q 002804 472 TVKYCHHYLK-GRCQEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDLS-----KYPCENFVAKGFCNRGDN 545 (879)
Q Consensus 472 s~~VCrfFlr-G~C~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~ls-----tipCkfF~~~G~C~rGds 545 (879)
....|.+|.. +.+-....|++.|....+.+. .+|++|+.|.|+.+..|.|+|.+. ..+|++|...|.|..|..
T Consensus 73 n~~~~~~~~~~~~~~~~~s~~~~~~~~~~~s~-V~c~~~~~g~c~s~~~c~~lh~~d~~~s~~~~c~~Fs~~G~cs~g~~ 151 (285)
T COG5084 73 NTVACISRNFNSIRGSRLSTPNNHVNPVLSSS-VVCKFFLRGLCKSGFSCEFLHEYDLRSSQGPPCRSFSLKGSCSSGPS 151 (285)
T ss_pred cccccccccccCCccccccCCccccCccccCC-cccchhccccCcCCCccccccCCCcccccCCCcccccccceeccCCC
Confidence 3477999985 445455589999998665454 899999999999999999999974 678999977999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccccccc
Q 002804 546 CLFSHKLPPKEQDPPTPSTCTPELKPSPPLYASNLLKPLNNNKVSHQNVDALS 598 (879)
Q Consensus 546 CrFaH~~~~~~~lP~as~vCtp~Lkg~SpsssS~~~~pl~~q~~sSh~~k~~S 598 (879)
|.|.|..+.. ....|.-+.. ..++-++++.+|.+.|.....+
T Consensus 152 c~~~h~dp~~-----~~~~~~~~~~------~~~~f~p~g~~c~~~H~~~~~~ 193 (285)
T COG5084 152 CGYSHIDPDS-----FAGNCDQYSG------ATYGFCPLGASCKFSHTLKRVS 193 (285)
T ss_pred CCccccCccc-----ccccccccCc------ccccccCCCCcccccccccccc
Confidence 9999998432 2344532221 2678888889999998776443
No 12
>KOG4791 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.31 E-value=8.3e-07 Score=99.88 Aligned_cols=159 Identities=19% Similarity=0.229 Sum_probs=98.3
Q ss_pred ccccccccccCCCCCCCCCCCCCCCCCCCCCccccccccCC-CCCCCCCCCCCCC-------------------------
Q 002804 473 VKYCHHYLKGRCQEGDKCKFSHDTVPLTKSTKACCHFARNS-CMKGDNCPFDHDL------------------------- 526 (879)
Q Consensus 473 ~~VCrfFlrG~C~KGdkCkFSHD~splrK~t~~Ck~FlkGs-Ck~GD~CpFsH~l------------------------- 526 (879)
.++|+||+.+.|.+ +.|+|.|..-...+...+|.||+++. |.+ ++|-|+|..
T Consensus 32 ~t~C~~w~~~~~C~-k~C~YRHSe~~~kr~e~~CYwe~~p~gC~k-~~CgfRH~~pPLkg~l~~~p~~pe~ev~~~~~SA 109 (667)
T KOG4791|consen 32 ETVCTLWQEGRCCR-KVCRYRHSEIDKKRSEIPCYWENQPTGCQK-LNCGFRHNRPPLKGVLPTVPESPEEEVKASQLSA 109 (667)
T ss_pred cchhhhhhhcCccc-ccccchhhHHhhhcCcccceeecCCCccCC-CccccccCCCchhhhccCCCCCcccccccccccC
Confidence 48899999998887 48999999876654558999999987 998 999999941
Q ss_pred -------CCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCC-CCCCCCCCCCCCCCC--CCCCcccccc
Q 002804 527 -------SKYPCENFVAKGFCNRGDNCLFSHKLPPKEQDPPTPS---TCTPE-LKPSPPLYASNLLKP--LNNNKVSHQN 593 (879)
Q Consensus 527 -------stipCkfF~~~G~C~rGdsCrFaH~~~~~~~lP~as~---vCtp~-Lkg~SpsssS~~~~p--l~~q~~sSh~ 593 (879)
...||-+|+ .++|..++-|-|.|.++.......+.. .-++. -..+.+-..-..+-+ ++....-.|.
T Consensus 110 q~~sV~~~p~P~l~~~-K~~e~~~D~~s~Lh~P~A~~~~~d~e~~~~A~~e~~d~K~~~~l~~~KK~~~~~~~K~V~~H~ 188 (667)
T KOG4791|consen 110 QQNSVQSNPSPQLRSV-KKVESSEDVPSPLHPPVAINAADDDEDDDDAFSEEGDEKKTPTLQPTKKVHNGLRVKSVRKHA 188 (667)
T ss_pred CCcccccCCchHHHHh-hhhhhhccccccCCCCcccccccCcccccccccccccCCCCCCCCcccccCCcccceeecccc
Confidence 023699998 899999999999999865322111110 00000 111111111112222 2222233333
Q ss_pred ccc---cccCCCcCccccccccccccccCCCCCCCCCccccccCCc
Q 002804 594 VDA---LSNHGKVSSFKNIEQSVAKSILKPPALAPKGISYLFLGKS 636 (879)
Q Consensus 594 ~k~---~SsStgvs~~~sv~knVt~tv~sPP~~pPkGisFlsf~K~ 636 (879)
... .-.+.++.+...+. ....+..-|++.-+|..|.+|...
T Consensus 189 ~i~~~~~~~s~gi~D~~~v~--~k~~k~~~Pv~~~~G~Gv~s~~l~ 232 (667)
T KOG4791|consen 189 VNIKQGECLSFGIKDLEEIK--SKKMKEKSPVQGEGGSGVSSLLLH 232 (667)
T ss_pred cccccccccccccccHHHhc--cccccccCCCcccCCCCCChhhcC
Confidence 221 13455666654442 344555667778888888777665
No 13
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=98.30 E-value=5.8e-07 Score=97.61 Aligned_cols=53 Identities=28% Similarity=0.760 Sum_probs=45.3
Q ss_pred ccccccccccCCCCCCC-CCCCCCCCCCC---CCCccccccccCCCCCCCCCCCCCCC
Q 002804 473 VKYCHHYLKGRCQEGDK-CKFSHDTVPLT---KSTKACCHFARNSCMKGDNCPFDHDL 526 (879)
Q Consensus 473 ~~VCrfFlrG~C~KGdk-CkFSHD~splr---K~t~~Ck~FlkGsCk~GD~CpFsH~l 526 (879)
..|||-|++|.|.+|+. |||+|...... .....|..|++|.|.+ ++|+|.|..
T Consensus 37 ~eVCReF~rn~C~R~d~~CkfaHP~~~~~V~~g~v~aC~Ds~kgrCsR-~nCkylHpp 93 (331)
T KOG2494|consen 37 LEVCREFLRNTCSRGDRECKFAHPPKNCQVSNGRVIACFDSQKGRCSR-ENCKYLHPP 93 (331)
T ss_pred HHHHHHHHhccccCCCccccccCCCCCCCccCCeEEEEeccccCccCc-ccceecCCC
Confidence 48899999999999998 99999986432 1136899999999999 899999983
No 14
>KOG1677 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=97.89 E-value=6.4e-06 Score=88.34 Aligned_cols=53 Identities=34% Similarity=0.787 Sum_probs=46.9
Q ss_pred cccccccc-cCCCC-CCCCCCCCCCCCCC-------------CCCcccccccc-CCCCCCCCCCCCCCC
Q 002804 474 KYCHHYLK-GRCQE-GDKCKFSHDTVPLT-------------KSTKACCHFAR-NSCMKGDNCPFDHDL 526 (879)
Q Consensus 474 ~VCrfFlr-G~C~K-GdkCkFSHD~splr-------------K~t~~Ck~Flk-GsCk~GD~CpFsH~l 526 (879)
.+|++|.. |.|++ |++|+|.|....++ .++++|.+|.+ |.|++|..|.|.|..
T Consensus 133 ~lc~~~~~~g~c~y~ge~crfah~~~e~r~~~~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~ 201 (332)
T KOG1677|consen 133 PLCRSFRKSGTCKYRGEQCRFAHGLEELRLPSSENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGE 201 (332)
T ss_pred CcceeeecCccccccCchhhhcCCcccccccccchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCC
Confidence 88999996 99999 99999999986655 12689999998 999999999999984
No 15
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=97.54 E-value=7.6e-05 Score=81.02 Aligned_cols=81 Identities=26% Similarity=0.520 Sum_probs=67.3
Q ss_pred cccccccc-cCCCC---CCCCCCC---CCCCCCC-------CCCcccccccc-CCCCCCCCCCCCCCC------------
Q 002804 474 KYCHHYLK-GRCQE---GDKCKFS---HDTVPLT-------KSTKACCHFAR-NSCMKGDNCPFDHDL------------ 526 (879)
Q Consensus 474 ~VCrfFlr-G~C~K---GdkCkFS---HD~splr-------K~t~~Ck~Flk-GsCk~GD~CpFsH~l------------ 526 (879)
.+|.-|.. |.|.. |++|.|+ |.+..+. .++.+|..|.. |.|.+|..|.|.|.-
T Consensus 231 ~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~~ie~~~~~~~ 310 (351)
T COG5063 231 ELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKKKKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDSDIEMYEEASL 310 (351)
T ss_pred HHhhccCcCCCCccccccccccccccccccccccccccccccccCCccchhhcccCccccccccccCChhhccccccccc
Confidence 67999984 99999 9999999 9976542 12589999986 999999999999982
Q ss_pred --CCCCCccccccCCCCCCCCCCCCCCCCC
Q 002804 527 --SKYPCENFVAKGFCNRGDNCLFSHKLPP 554 (879)
Q Consensus 527 --stipCkfF~~~G~C~rGdsCrFaH~~~~ 554 (879)
..-+|+.|..+|.|+.|..|.+.|...-
T Consensus 311 ~y~~~~crt~~~~g~~p~g~~~c~~~dkkn 340 (351)
T COG5063 311 GYLDGPCRTRAKGGAFPSGGAVCKSFDKKN 340 (351)
T ss_pred cccccccccccccCccCCCCchhhccccch
Confidence 1346999998999999988999998754
No 16
>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]
Probab=97.53 E-value=3.3e-05 Score=84.33 Aligned_cols=51 Identities=35% Similarity=0.754 Sum_probs=44.0
Q ss_pred ccccccccCCCCCCCC-CCCCCCCC--------CCCCccccccCCCCCCCCCCCCCCCCCCC
Q 002804 504 KACCHFARNSCMKGDN-CPFDHDLS--------KYPCENFVAKGFCNRGDNCLFSHKLPPKE 556 (879)
Q Consensus 504 ~~Ck~FlkGsCk~GD~-CpFsH~ls--------tipCkfF~~~G~C~rGdsCrFaH~~~~~~ 556 (879)
.+|+.|++|.|.+|+. |+|+|... -+-|.+|+ +|.|.+. +|+|.|.....+
T Consensus 38 eVCReF~rn~C~R~d~~CkfaHP~~~~~V~~g~v~aC~Ds~-kgrCsR~-nCkylHpp~hlk 97 (331)
T KOG2494|consen 38 EVCREFLRNTCSRGDRECKFAHPPKNCQVSNGRVIACFDSQ-KGRCSRE-NCKYLHPPQHLK 97 (331)
T ss_pred HHHHHHHhccccCCCccccccCCCCCCCccCCeEEEEeccc-cCccCcc-cceecCCChhhh
Confidence 5999999999999997 99999853 23499999 8999995 899999987654
No 17
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=97.30 E-value=5.7e-05 Score=55.04 Aligned_cols=23 Identities=43% Similarity=1.193 Sum_probs=16.7
Q ss_pred cccccccc-cCCCCCCCCCCCCCC
Q 002804 474 KYCHHYLK-GRCQEGDKCKFSHDT 496 (879)
Q Consensus 474 ~VCrfFlr-G~C~KGdkCkFSHD~ 496 (879)
.+|++|++ |.|.+|+.|+|+|+.
T Consensus 4 ~~C~~f~~~g~C~~G~~C~f~H~~ 27 (27)
T PF00642_consen 4 KLCRFFMRTGTCPFGDKCRFAHGE 27 (27)
T ss_dssp SB-HHHHHTS--TTGGGSSSBSSG
T ss_pred ccChhhccCCccCCCCCcCccCCC
Confidence 78888886 889999999998873
No 18
>KOG1595 consensus CCCH-type Zn-finger protein [General function prediction only]
Probab=97.12 E-value=0.0074 Score=69.93 Aligned_cols=56 Identities=27% Similarity=0.464 Sum_probs=38.6
Q ss_pred CCCCCccccccCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCcccccccc
Q 002804 527 SKYPCENFVAKGFCNRGDNCLFSHKLPPKEQDPP--TPSTCTPELKPSPPLYASNLLKPLNNNKVSHQNVD 595 (879)
Q Consensus 527 stipCkfF~~~G~C~rGdsCrFaH~~~~~~~lP~--as~vCtp~Lkg~SpsssS~~~~pl~~q~~sSh~~k 595 (879)
+-.+|..|. +|.|.+||.|-|.|..-+--.-|. .+..|.+ + +.|++ .-|||.|-..
T Consensus 235 s~tpCPefr-kG~C~rGD~CEyaHgvfEcwLHPa~YRT~~CkD--------g---~~C~R-rvCfFAH~~e 292 (528)
T KOG1595|consen 235 SSTPCPEFR-KGSCERGDSCEYAHGVFECWLHPARYRTRKCKD--------G---GYCPR-RVCFFAHSPE 292 (528)
T ss_pred cCccCcccc-cCCCCCCCccccccceehhhcCHHHhccccccC--------C---CCCcc-ceEeeecChH
Confidence 467899998 799999999999999876332221 1234543 2 55666 7788887554
No 19
>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]
Probab=97.05 E-value=0.0013 Score=71.72 Aligned_cols=52 Identities=35% Similarity=0.785 Sum_probs=46.1
Q ss_pred cccccccc-CCCCC---CCCCCCC---CCC------------CCCCCccccccCCCCCCCCCCCCCCCCCC
Q 002804 504 KACCHFAR-NSCMK---GDNCPFD---HDL------------SKYPCENFVAKGFCNRGDNCLFSHKLPPK 555 (879)
Q Consensus 504 ~~Ck~Flk-GsCk~---GD~CpFs---H~l------------stipCkfF~~~G~C~rGdsCrFaH~~~~~ 555 (879)
.+|..|.. |.|.. |+.|.|+ |.+ ++.||..|...|+|+.|.+|.|.|.-...
T Consensus 231 ~lc~~ft~kg~~p~~~sG~~~q~a~~~HGlN~l~~k~k~~~frTePcinwe~sGyc~yg~Rc~F~hgd~~~ 301 (351)
T COG5063 231 ELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKKKKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDSD 301 (351)
T ss_pred HHhhccCcCCCCccccccccccccccccccccccccccccccccCCccchhhcccCccccccccccCChhh
Confidence 58999964 99999 9999999 884 46799999999999999999999997764
No 20
>smart00356 ZnF_C3H1 zinc finger.
Probab=96.99 E-value=0.00048 Score=48.69 Aligned_cols=22 Identities=41% Similarity=1.126 Sum_probs=16.6
Q ss_pred cccccccccCCCCCCCCCCCCC
Q 002804 474 KYCHHYLKGRCQEGDKCKFSHD 495 (879)
Q Consensus 474 ~VCrfFlrG~C~KGdkCkFSHD 495 (879)
.+|++|..|.|.+|+.|+|+|+
T Consensus 5 ~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 5 ELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CcCcCccCCCCCCCCCcCCCCc
Confidence 5677777777777777777776
No 21
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=96.65 E-value=0.00039 Score=50.71 Aligned_cols=23 Identities=39% Similarity=0.850 Sum_probs=10.5
Q ss_pred CCCccccccCCCCCCCCCCCCCC
Q 002804 529 YPCENFVAKGFCNRGDNCLFSHK 551 (879)
Q Consensus 529 ipCkfF~~~G~C~rGdsCrFaH~ 551 (879)
.+|++|...|.|++|+.|+|.|.
T Consensus 4 ~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 4 KLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp SB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccChhhccCCccCCCCCcCccCC
Confidence 34555554455555555555553
No 22
>smart00356 ZnF_C3H1 zinc finger.
Probab=96.01 E-value=0.0042 Score=43.86 Aligned_cols=22 Identities=41% Similarity=0.907 Sum_probs=14.7
Q ss_pred ccccccccCCCCCCCCCCCCCC
Q 002804 504 KACCHFARNSCMKGDNCPFDHD 525 (879)
Q Consensus 504 ~~Ck~FlkGsCk~GD~CpFsH~ 525 (879)
.+|++|..|.|.+|+.|+|+|.
T Consensus 5 ~~C~~~~~g~C~~g~~C~~~H~ 26 (27)
T smart00356 5 ELCKFFKRGYCPYGDRCKFAHP 26 (27)
T ss_pred CcCcCccCCCCCCCCCcCCCCc
Confidence 4677666666777667777664
No 23
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=95.63 E-value=0.0041 Score=71.54 Aligned_cols=58 Identities=31% Similarity=0.706 Sum_probs=36.8
Q ss_pred ccccccccc---CCCCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCCCCCCccccccCCCCCCCCCCCCC
Q 002804 474 KYCHHYLKG---RCQEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDLSKYPCENFVAKGFCNRGDNCLFSH 550 (879)
Q Consensus 474 ~VCrfFlrG---~C~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~lstipCkfF~~~G~C~rGdsCrFaH 550 (879)
.+|.-..+| .|.+|++|+|-||...- +. .++++ -...|..|...|+|++|-.|+|.-
T Consensus 77 ~LCPsli~g~~~~C~f~d~Crf~HDi~ay----------La---tK~~D-------ig~~Cp~f~s~G~Cp~G~~CRFl~ 136 (614)
T KOG2333|consen 77 RLCPSLIQGDISKCSFGDNCRFVHDIEAY----------LA---TKAPD-------IGPSCPVFESLGFCPYGFKCRFLG 136 (614)
T ss_pred ccChHhhcCCCccCcccccccccccHHHH----------Hh---ccCcc-------cCCccceeeccccCCccceeehhh
Confidence 778777765 57778888888876421 10 00000 012477788888999998999864
Q ss_pred C
Q 002804 551 K 551 (879)
Q Consensus 551 ~ 551 (879)
.
T Consensus 137 a 137 (614)
T KOG2333|consen 137 A 137 (614)
T ss_pred c
Confidence 3
No 24
>KOG2333 consensus Uncharacterized conserved protein [General function prediction only]
Probab=95.62 E-value=0.0034 Score=72.18 Aligned_cols=25 Identities=36% Similarity=0.837 Sum_probs=19.9
Q ss_pred ccccccccC---CCCCCCCCCCCCCCCC
Q 002804 504 KACCHFARN---SCMKGDNCPFDHDLSK 528 (879)
Q Consensus 504 ~~Ck~FlkG---sCk~GD~CpFsH~lst 528 (879)
.+|+....| .|.+|++|+|.|+...
T Consensus 77 ~LCPsli~g~~~~C~f~d~Crf~HDi~a 104 (614)
T KOG2333|consen 77 RLCPSLIQGDISKCSFGDNCRFVHDIEA 104 (614)
T ss_pred ccChHhhcCCCccCcccccccccccHHH
Confidence 577777765 5999999999999643
No 25
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=94.80 E-value=0.015 Score=65.86 Aligned_cols=25 Identities=48% Similarity=1.006 Sum_probs=14.2
Q ss_pred CCCCccccccCCCCCCCCCCCCCCCC
Q 002804 528 KYPCENFVAKGFCNRGDNCLFSHKLP 553 (879)
Q Consensus 528 tipCkfF~~~G~C~rGdsCrFaH~~~ 553 (879)
..||.||+ .|.|+++.+|+|.|...
T Consensus 140 MkpC~ffL-eg~CRF~enCRfSHG~~ 164 (486)
T KOG2185|consen 140 MKPCKFFL-EGRCRFGENCRFSHGLD 164 (486)
T ss_pred hccchHhh-ccccccCcccccccCcc
Confidence 34566665 55666665566666544
No 26
>KOG2185 consensus Predicted RNA-processing protein, contains G-patch domain [RNA processing and modification]
Probab=93.50 E-value=0.029 Score=63.59 Aligned_cols=24 Identities=46% Similarity=1.147 Sum_probs=13.5
Q ss_pred ccccccccccCCCCCCCCCCCCCC
Q 002804 473 VKYCHHYLKGRCQEGDKCKFSHDT 496 (879)
Q Consensus 473 ~~VCrfFlrG~C~KGdkCkFSHD~ 496 (879)
+.+|.||+.|.|+.|.+|+|+|..
T Consensus 140 MkpC~ffLeg~CRF~enCRfSHG~ 163 (486)
T KOG2185|consen 140 MKPCKFFLEGRCRFGENCRFSHGL 163 (486)
T ss_pred hccchHhhccccccCcccccccCc
Confidence 345555555555555555555554
No 27
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=92.34 E-value=0.082 Score=36.20 Aligned_cols=17 Identities=47% Similarity=1.118 Sum_probs=10.4
Q ss_pred cccccccCCCCCCCCCCCC
Q 002804 476 CHHYLKGRCQEGDKCKFSH 494 (879)
Q Consensus 476 CrfFlrG~C~KGdkCkFSH 494 (879)
|+||.. |.+|+.|.|+|
T Consensus 2 Ck~~~~--C~~~~~C~f~H 18 (19)
T PF14608_consen 2 CKFGPN--CTNGDNCPFSH 18 (19)
T ss_pred CcCcCC--CCCCCcCccCC
Confidence 665543 66666666666
No 28
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=91.32 E-value=0.14 Score=35.07 Aligned_cols=19 Identities=53% Similarity=1.071 Sum_probs=11.4
Q ss_pred CCccccccCCCCCCCCCCCCCC
Q 002804 530 PCENFVAKGFCNRGDNCLFSHK 551 (879)
Q Consensus 530 pCkfF~~~G~C~rGdsCrFaH~ 551 (879)
+|+||.. |++++.|.|.|.
T Consensus 1 ~Ck~~~~---C~~~~~C~f~HP 19 (19)
T PF14608_consen 1 PCKFGPN---CTNGDNCPFSHP 19 (19)
T ss_pred CCcCcCC---CCCCCcCccCCc
Confidence 3665542 666666666663
No 29
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=88.62 E-value=0.79 Score=55.01 Aligned_cols=22 Identities=27% Similarity=0.653 Sum_probs=15.5
Q ss_pred cccccccccCCCCCCCCCCCCCCCC
Q 002804 474 KYCHHYLKGRCQEGDKCKFSHDTVP 498 (879)
Q Consensus 474 ~VCrfFlrG~C~KGdkCkFSHD~sp 498 (879)
..|.||. .|. +..|.|.|...+
T Consensus 545 ~~Cky~~--~Ct-~a~Ce~~HPtaa 566 (681)
T KOG3702|consen 545 TRCKYGP--ACT-SAECEFAHPTAA 566 (681)
T ss_pred ccccCCC--cCC-chhhhhcCCcch
Confidence 5577774 466 578888888765
No 30
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=87.39 E-value=1.2 Score=53.42 Aligned_cols=66 Identities=21% Similarity=0.392 Sum_probs=38.3
Q ss_pred cccccccc---cCC------CCCCCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCC-----------------
Q 002804 474 KYCHHYLK---GRC------QEGDKCKFSHDTVPLTKSTKACCHFARNSCMKGDNCPFDHDLS----------------- 527 (879)
Q Consensus 474 ~VCrfFlr---G~C------~KGdkCkFSHD~splrK~t~~Ck~FlkGsCk~GD~CpFsH~ls----------------- 527 (879)
..|.|+.. +.| ..+..|.|+|.. |++=. .|.. .+|.|.|...
T Consensus 556 a~Ce~~HPtaa~~~~s~p~k~fa~~~~ks~p~---------Ck~~~--kCta-sDC~~sH~~~~~pvq~t~ip~~~~~~t 623 (681)
T KOG3702|consen 556 AECEFAHPTAAENAKSLPNKKFASKCLKSHPG---------CKFGK--KCTA-SDCNYSHAGRRIPVQPTRIPPPFPGGT 623 (681)
T ss_pred hhhhhcCCcchhhhhccccccccccceecccc---------ccccc--cccc-ccCcccccCCCCCCccccCCCCCCCCC
Confidence 66666642 333 455555555544 33222 3655 6777777632
Q ss_pred -CCCCccccccCCCCCCCCCCCCCCCCCC
Q 002804 528 -KYPCENFVAKGFCNRGDNCLFSHKLPPK 555 (879)
Q Consensus 528 -tipCkfF~~~G~C~rGdsCrFaH~~~~~ 555 (879)
..+|+||- .|.+- .|+|.|...+.
T Consensus 624 i~~~CrY~p---nCrnm-~C~F~HPk~cR 648 (681)
T KOG3702|consen 624 IRGLCRYRP---NCRNM-QCKFYHPKTCR 648 (681)
T ss_pred ccccceecc---CcCCc-cccccCCcccc
Confidence 23477654 48874 89999988873
No 31
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=84.68 E-value=0.47 Score=50.05 Aligned_cols=30 Identities=37% Similarity=0.846 Sum_probs=24.8
Q ss_pred cCCCcccccccccc-cCCCCCCCCCCCCCCCC
Q 002804 468 LKPKTVKYCHHYLK-GRCQEGDKCKFSHDTVP 498 (879)
Q Consensus 468 ~DPKs~~VCrfFlr-G~C~KGdkCkFSHD~sp 498 (879)
.|-.. .||+-|.. |.|-+|+.|+|+|+...
T Consensus 137 iD~qp-dVCKdyk~TGYCGYGDsCKflH~R~D 167 (259)
T COG5152 137 IDTQP-DVCKDYKETGYCGYGDSCKFLHDRSD 167 (259)
T ss_pred eecCc-ccccchhhcccccCCchhhhhhhhhh
Confidence 44444 78999985 99999999999999764
No 32
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.08 E-value=0.59 Score=52.60 Aligned_cols=24 Identities=42% Similarity=0.912 Sum_probs=23.2
Q ss_pred cccccccccCCCCCCCCCCCCCCC
Q 002804 474 KYCHHYLKGRCQEGDKCKFSHDTV 497 (879)
Q Consensus 474 ~VCrfFlrG~C~KGdkCkFSHD~s 497 (879)
.+|+||.+|.|+.|+.|+|+|...
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~~ 32 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSLP 32 (344)
T ss_pred hhhhhcccccccccceeeeeccCc
Confidence 789999999999999999999987
No 33
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=79.31 E-value=0.74 Score=48.68 Aligned_cols=24 Identities=33% Similarity=0.966 Sum_probs=14.7
Q ss_pred CCccccccCCCCCCCCCCCCCCCC
Q 002804 530 PCENFVAKGFCNRGDNCLFSHKLP 553 (879)
Q Consensus 530 pCkfF~~~G~C~rGdsCrFaH~~~ 553 (879)
+|+.|..+|||-+|+.|+|.|...
T Consensus 143 VCKdyk~TGYCGYGDsCKflH~R~ 166 (259)
T COG5152 143 VCKDYKETGYCGYGDSCKFLHDRS 166 (259)
T ss_pred cccchhhcccccCCchhhhhhhhh
Confidence 466666666666666666666654
No 34
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=73.89 E-value=1.8 Score=31.62 Aligned_cols=19 Identities=26% Similarity=0.620 Sum_probs=9.8
Q ss_pred cccccccC-CCCCCCCCCCCC
Q 002804 505 ACCHFARN-SCMKGDNCPFDH 524 (879)
Q Consensus 505 ~Ck~FlkG-sCk~GD~CpFsH 524 (879)
+|.|-+.| .|.. +.|.|.|
T Consensus 2 lC~yEl~Gg~Cnd-~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCND-PDCEFQH 21 (23)
T ss_pred CCccccCCCeeCC-CCCCccc
Confidence 45555554 4544 4555555
No 35
>KOG1763 consensus Uncharacterized conserved protein, contains CCCH-type Zn-finger [General function prediction only]
Probab=69.78 E-value=1.5 Score=48.68 Aligned_cols=23 Identities=48% Similarity=1.152 Sum_probs=22.0
Q ss_pred ccccccccCCCCCCCCCCCCCCC
Q 002804 504 KACCHFARNSCMKGDNCPFDHDL 526 (879)
Q Consensus 504 ~~Ck~FlkGsCk~GD~CpFsH~l 526 (879)
.+|-+|..|.|..|+.|.|+|++
T Consensus 93 vvCafFk~g~C~KG~kCKFsHdl 115 (343)
T KOG1763|consen 93 VVCAFFKQGTCTKGDKCKFSHDL 115 (343)
T ss_pred HHHHHHhccCCCCCCcccccchH
Confidence 79999999999999999999995
No 36
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=69.59 E-value=2.6 Score=30.78 Aligned_cols=21 Identities=33% Similarity=0.724 Sum_probs=12.3
Q ss_pred CCccccccCCCCCCCCCCCCCC
Q 002804 530 PCENFVAKGFCNRGDNCLFSHK 551 (879)
Q Consensus 530 pCkfF~~~G~C~rGdsCrFaH~ 551 (879)
.|.|....|.|... .|.|.|.
T Consensus 2 lC~yEl~Gg~Cnd~-~C~~QHf 22 (23)
T PF10650_consen 2 LCPYELTGGVCNDP-DCEFQHF 22 (23)
T ss_pred CCccccCCCeeCCC-CCCcccc
Confidence 46666643466653 6777664
No 37
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.41 E-value=2.9 Score=46.49 Aligned_cols=25 Identities=44% Similarity=0.954 Sum_probs=22.1
Q ss_pred cccccccc-cCCCCCCCCCCCCCCCC
Q 002804 474 KYCHHYLK-GRCQEGDKCKFSHDTVP 498 (879)
Q Consensus 474 ~VCrfFlr-G~C~KGdkCkFSHD~sp 498 (879)
.+|+-|.. |.|.+|+.|+|.|+...
T Consensus 187 DicKdykeTgycg~gdSckFlh~r~D 212 (313)
T KOG1813|consen 187 DICKDYKETGYCGYGDSCKFLHDRSD 212 (313)
T ss_pred hhhhhhHhhCcccccchhhhhhhhhh
Confidence 57999984 99999999999999753
No 38
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.83 E-value=2.1 Score=48.35 Aligned_cols=23 Identities=30% Similarity=0.774 Sum_probs=14.6
Q ss_pred ccccccccCCCCCCCCCCCCCCC
Q 002804 504 KACCHFARNSCMKGDNCPFDHDL 526 (879)
Q Consensus 504 ~~Ck~FlkGsCk~GD~CpFsH~l 526 (879)
.+|+||++|.|+.|+.|+|.|.+
T Consensus 9 tic~~~~~g~c~~g~~cr~~h~~ 31 (344)
T KOG1039|consen 9 TICKYYQKGNCKFGDLCRLSHSL 31 (344)
T ss_pred hhhhhcccccccccceeeeeccC
Confidence 46666666666666666666653
No 39
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.42 E-value=2 Score=47.76 Aligned_cols=23 Identities=35% Similarity=0.766 Sum_probs=15.0
Q ss_pred cccccccc-CCCCCCCCCCCCCCC
Q 002804 504 KACCHFAR-NSCMKGDNCPFDHDL 526 (879)
Q Consensus 504 ~~Ck~Flk-GsCk~GD~CpFsH~l 526 (879)
.+|+.|.. |.|-+|+.|.|.|..
T Consensus 187 DicKdykeTgycg~gdSckFlh~r 210 (313)
T KOG1813|consen 187 DICKDYKETGYCGYGDSCKFLHDR 210 (313)
T ss_pred hhhhhhHhhCcccccchhhhhhhh
Confidence 46776653 667777777777754
No 40
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=62.18 E-value=4.3 Score=46.06 Aligned_cols=30 Identities=27% Similarity=0.811 Sum_probs=25.6
Q ss_pred cCCCcccccccccccCCCCCCCCCCCCCCC
Q 002804 468 LKPKTVKYCHHYLKGRCQEGDKCKFSHDTV 497 (879)
Q Consensus 468 ~DPKs~~VCrfFlrG~C~KGdkCkFSHD~s 497 (879)
..+++..+|-||..|.|++|..|.|.|+..
T Consensus 156 ykrn~p~Icsf~v~geckRG~ec~yrhEkp 185 (377)
T KOG0153|consen 156 YKRNRPHICSFFVKGECKRGAECPYRHEKP 185 (377)
T ss_pred ccCCCCccccceeeccccccccccccccCC
Confidence 345556889999999999999999999986
No 41
>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]
Probab=58.56 E-value=1.7 Score=47.12 Aligned_cols=52 Identities=38% Similarity=0.859 Sum_probs=43.1
Q ss_pred CccccccccCCCCCCCCCCCCCCC-------------------------------CCCCCccccc------cC---CCCC
Q 002804 503 TKACCHFARNSCMKGDNCPFDHDL-------------------------------SKYPCENFVA------KG---FCNR 542 (879)
Q Consensus 503 t~~Ck~FlkGsCk~GD~CpFsH~l-------------------------------stipCkfF~~------~G---~C~r 542 (879)
+.+|-.|+.+.|..|+.|.|+|.+ ...+|+||.. || .|++
T Consensus 85 ~~vcalF~~~~c~kg~~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~krP~intd~VCkffieA~e~GkYgw~W~CPn 164 (299)
T COG5252 85 TVVCALFLNKTCAKGDACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGWGWTCPN 164 (299)
T ss_pred hHHHHHhccCccccCchhhhhcchHHHhhhcccchhhhhhhhhccCCcccCCCCChhHHHHHHHHHHhcCCccceeeCCC
Confidence 379999999999999999999982 1235998873 33 6999
Q ss_pred C-CCCCCCCCCCC
Q 002804 543 G-DNCLFSHKLPP 554 (879)
Q Consensus 543 G-dsCrFaH~~~~ 554 (879)
| ..|.|.|.++.
T Consensus 165 g~~~C~y~H~Lp~ 177 (299)
T COG5252 165 GNMRCSYIHKLPD 177 (299)
T ss_pred CCceeeeeeccCc
Confidence 9 78999999986
No 42
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=55.20 E-value=6.1 Score=44.90 Aligned_cols=24 Identities=29% Similarity=1.003 Sum_probs=20.2
Q ss_pred CccccccccCCCCCCCCCCCCCCC
Q 002804 503 TKACCHFARNSCMKGDNCPFDHDL 526 (879)
Q Consensus 503 t~~Ck~FlkGsCk~GD~CpFsH~l 526 (879)
+.+|.+|..|.|++|..|+|+|..
T Consensus 161 p~Icsf~v~geckRG~ec~yrhEk 184 (377)
T KOG0153|consen 161 PHICSFFVKGECKRGAECPYRHEK 184 (377)
T ss_pred CccccceeeccccccccccccccC
Confidence 468889988899888999999974
No 43
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=53.97 E-value=5.9 Score=43.35 Aligned_cols=35 Identities=20% Similarity=0.496 Sum_probs=29.9
Q ss_pred CCCCCccCCCcccccccccccCCCCCCCCCCCCCCC
Q 002804 462 LKLPQNLKPKTVKYCHHYLKGRCQEGDKCKFSHDTV 497 (879)
Q Consensus 462 ~k~p~v~DPKs~~VCrfFlrG~C~KGdkCkFSHD~s 497 (879)
..+.++.+++. ..|.+|-.+.|.+|..|.|-|...
T Consensus 142 ae~~pvT~~re-a~C~~~e~~~C~rG~~CnFmH~k~ 176 (260)
T KOG2202|consen 142 AELSPVTDFRE-AICGQFERTECSRGGACNFMHVKR 176 (260)
T ss_pred eeecCcCchhh-hhhcccccccCCCCCcCcchhhhh
Confidence 46677788887 889999999999999999999874
No 44
>PF07620 SLEI_Leptospira: SLEI; InterPro: IPR011512 This entry represents a highly conserved sequence motif found at the C-terminal of some hypothetical proteins from Leptospira interrogans.
Probab=24.68 E-value=21 Score=24.34 Aligned_cols=13 Identities=62% Similarity=0.764 Sum_probs=10.8
Q ss_pred ccccCccccchHH
Q 002804 218 KLRTNSLEFENEM 230 (879)
Q Consensus 218 ~~~~~~~~~~~~~ 230 (879)
-+|.|+||++|.|
T Consensus 4 ~~rdNsLeIsn~~ 16 (16)
T PF07620_consen 4 WLRDNSLEISNQM 16 (16)
T ss_pred cccCCeEEEeecC
Confidence 4689999999865
Done!